{ "type": "genome", "identifier": "GCA_013213835.1", "organism": "Winogradskyella sp.", "title": "Winogradskyella sp.", "description": "derived from metagenome", "data type": "Genome sequencing and assembly", "organization": "Simons Collaboration on Ocean Processes and Ecology (SCOPE)", "publication": [ {} ], "properties": { "assembly_accession": "GCA_013213835.1", "bioproject": "PRJNA482655", "biosample": "SAMN14675808", "wgs_master": "JABSSU000000000.1", "refseq_category": "na", "taxid": "1883156", "species_taxid": "1883156", "organism_name": "Winogradskyella sp.", "infraspecific_name": "", "isolate": "DT_120", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/06/02", "asm_name": "ASM1321383v1", "submitter": "Simons Collaboration on Ocean Processes and Ecology (SCOPE)", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/013/213/835/GCA_013213835.1_ASM1321383v1", "excluded_from_refseq": "derived from metagenome", "relation_to_type_material": "", "asm_not_live_date": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-06-02", "dateModified": "2020-06-02", "datePublished": "2020-06-02", "_annotation": { "sample_count": 1, "sample_organism": [ "Winogradskyella sp." ], "sample_taxid": [ "1883156" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Pacific Ocean: North Pacific Gyre, Station ALOHA" ], "sample_host_location_id": [], "data_size": "0.989 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 100.0, "contamination": 6.94, "strain_heterogeneity": 80.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "3545905", "Number of Sequences": "24", "Longest Sequences (bp)": "631840", "N50 (bp)": "412162", "Gap Ratio (%)": "0.024846", "GCcontent (%)": "33.2", "Number of CDSs": "3134", "Average Protein Length": "343.1", "Coding Ratio (%)": "91.0", "Number of rRNAs": "2", "Number of tRNAs": "54", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Winogradskyella echinorum", "strain": "strain=KCTC 22026", "accession": "GCA_014297365.1", "taxid": 538189, "species_taxid": 538189, "relation_to_type": "type", "validated": true, "ani": 78.5882, "matched_fragments": 405, "total_fragments": 1170, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Winogradskyella algicola", "strain": "strain=IMCC33238", "accession": "GCA_005869935.1", "taxid": 2575815, "species_taxid": 2575815, "relation_to_type": "type", "validated": true, "ani": 78.5867, "matched_fragments": 444, "total_fragments": 1170, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Winogradskyella echinorum", "strain": "strain=KCTC 22026", "accession": "GCA_014284085.1", "taxid": 538189, "species_taxid": 538189, "relation_to_type": "type", "validated": true, "ani": 78.5779, "matched_fragments": 406, "total_fragments": 1170, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Winogradskyella thalassocola", "strain": "strain=DSM 15363", "accession": "GCA_900099995.1", "taxid": 262004, "species_taxid": 262004, "relation_to_type": "type", "validated": true, "ani": 78.5318, "matched_fragments": 331, "total_fragments": 1170, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Winogradskyella flava", "strain": "strain=KCTC 52348", "accession": "GCA_014243395.1", "taxid": 1884876, "species_taxid": 1884876, "relation_to_type": "type", "validated": true, "ani": 78.5195, "matched_fragments": 339, "total_fragments": 1170, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Winogradskyella litoriviva", "strain": "strain=KMM6491", "accession": "GCA_013249065.1", "taxid": 1220182, "species_taxid": 1220182, "relation_to_type": "type", "validated": true, "ani": 78.2814, "matched_fragments": 384, "total_fragments": 1170, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Winogradskyella wichelsiae", "strain": "strain=Z738", "accession": "GCA_013403925.1", "taxid": 2697007, "species_taxid": 2697007, "relation_to_type": "type", "validated": true, "ani": 78.1804, "matched_fragments": 350, "total_fragments": 1170, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Winogradskyella endarachnes", "strain": "strain=HL2-2", "accession": "GCA_009741275.1", "taxid": 2681965, "species_taxid": 2681965, "relation_to_type": "type", "validated": true, "ani": 78.1606, "matched_fragments": 382, "total_fragments": 1170, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Winogradskyella sediminis", "strain": "strain=DSM 28134", "accession": "GCA_003387355.1", "taxid": 1382466, "species_taxid": 1382466, "relation_to_type": "type", "validated": true, "ani": 78.0821, "matched_fragments": 331, "total_fragments": 1170, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Winogradskyella psychrotolerans", "strain": "strain=RS-3", "accession": "GCA_000427335.1", "taxid": 1344585, "species_taxid": 1344585, "relation_to_type": "type", "validated": true, "ani": 78.016, "matched_fragments": 353, "total_fragments": 1170, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Winogradskyella costae", "strain": "strain=Z3138", "accession": "GCA_013403865.1", "taxid": 2697008, "species_taxid": 2697008, "relation_to_type": "type", "validated": true, "ani": 77.9127, "matched_fragments": 321, "total_fragments": 1170, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Winogradskyella haliclonae", "strain": "strain=CCM 8681", "accession": "GCA_014635865.1", "taxid": 2048558, "species_taxid": 2048558, "relation_to_type": "type", "validated": true, "ani": 77.888, "matched_fragments": 297, "total_fragments": 1170, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Winogradskyella tangerina", "strain": "strain=M1309", "accession": "GCA_003260205.1", "taxid": 2023240, "species_taxid": 2023240, "relation_to_type": "type", "validated": true, "ani": 77.8536, "matched_fragments": 348, "total_fragments": 1170, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Winogradskyella vidalii", "strain": "strain=HL634", "accession": "GCA_013403955.1", "taxid": 2615024, "species_taxid": 2615024, "relation_to_type": "type", "validated": true, "ani": 77.8518, "matched_fragments": 318, "total_fragments": 1170, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Winogradskyella jejuensis", "strain": "strain=DSM 25330", "accession": "GCA_900129745.1", "taxid": 1089305, "species_taxid": 1089305, "relation_to_type": "type", "validated": true, "ani": 77.8078, "matched_fragments": 288, "total_fragments": 1170, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Hanstruepera neustonica", "strain": "strain=JCM19743", "accession": "GCA_002895005.1", "taxid": 1445657, "species_taxid": 1445657, "relation_to_type": "type", "validated": true, "ani": 77.5319, "matched_fragments": 161, "total_fragments": 1170, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Psychroserpens luteolus", "strain": "strain=XSD401", "accession": "GCA_021032705.1", "taxid": 2855840, "species_taxid": 2855840, "relation_to_type": "type", "validated": true, "ani": 77.4516, "matched_fragments": 237, "total_fragments": 1170, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Aestuariivivens insulae", "strain": "strain=AH-MY3", "accession": "GCA_022662195.1", "taxid": 1621988, "species_taxid": 1621988, "relation_to_type": "type", "validated": true, "ani": 77.3067, "matched_fragments": 107, "total_fragments": 1170, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Tamlana nanhaiensis", "strain": "strain=FHC16", "accession": "GCA_000943555.1", "taxid": 1382798, "species_taxid": 1382798, "relation_to_type": "type", "validated": true, "ani": 77.1987, "matched_fragments": 186, "total_fragments": 1170, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Hyunsoonleella pacifica", "strain": "strain=SW033", "accession": "GCA_004310335.1", "taxid": 1080224, "species_taxid": 1080224, "relation_to_type": "type", "validated": true, "ani": 77.1678, "matched_fragments": 187, "total_fragments": 1170, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Hyunsoonleella flava", "strain": "strain=T58", "accession": "GCA_004310325.1", "taxid": 2527939, "species_taxid": 2527939, "relation_to_type": "type", "validated": true, "ani": 77.0932, "matched_fragments": 172, "total_fragments": 1170, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavivirga algicola", "strain": "strain=Y03", "accession": "GCA_012910715.1", "taxid": 2729136, "species_taxid": 2729136, "relation_to_type": "type", "validated": true, "ani": 76.979, "matched_fragments": 191, "total_fragments": 1170, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Hyunsoonleella ulvae", "strain": "strain=HU1-3", "accession": "GCA_016827605.1", "taxid": 2799948, "species_taxid": 2799948, "relation_to_type": "type", "validated": true, "ani": 76.9059, "matched_fragments": 174, "total_fragments": 1170, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Tenacibaculum aquimarinum", "strain": "strain=K20-16", "accession": "GCA_022478115.1", "taxid": 2910675, "species_taxid": 2910675, "relation_to_type": "type", "validated": true, "ani": 76.6306, "matched_fragments": 146, "total_fragments": 1170, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 6.94, "strain_heterogeneity": 80.0 }, "gtdb_result": [ { "accession": "GCA_013213835.1", "gtdb_species": "s__Winogradskyella sp013213835", "ani": 100.0, "matched_fragments": 1169, "total_fragments": 1170, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Winogradskyella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "N/A", "min_intra_species_ani": "N/A", "mean_intra_species_af": "N/A", "min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "conclusive" }, { "accession": "GCA_002722255.1", "gtdb_species": "s__Winogradskyella sp002722255", "ani": 78.8025, "matched_fragments": 375, "total_fragments": 1170, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Winogradskyella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.90", 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null, "growth_tmp": 25.6, "optimum_tmp": 26.458, "optimum_ph": 7.642, "genome_size": 3803524.5, "gc_content": null, "coding_genes": null, "rRNA16S_genes": null, "tRNA_genes": null, "gram_stain": 0.0, "sporulation": 0.5, "motility": 0.909, "range_salinity": null, "facultative_respiration": 0.125, "anaerobic_respiration": 0.0, "aerobic_respiration": 0.875, "mesophilic_range_tmp": null, "thermophilic_range_tmp": null, "psychrophilic_range_tmp": null, "bacillus_cell_shape": 1.0, "coccus_cell_shape": 0.0, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.0, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_gtdb_taxon": [ "d__Bacteria", "p__Bacteroidota", "c__Bacteroidia", "o__Flavobacteriales", "f__Flavobacteriaceae", "g__Winogradskyella", "s__Winogradskyella sp013213835" ], "_genome_taxon": [ "Winogradskyella", "sp.", "d__Bacteria", "p__Bacteroidota", "c__Bacteroidia", "o__Flavobacteriales", "f__Flavobacteriaceae", "g__Winogradskyella", "s__Winogradskyella sp013213835", "Bacteria", "Bacteroidota", "Bacteroidia", "Flavobacteriales", "Flavobacteriaceae", "Winogradskyella", "Winogradskyella", "sp013213835" ], "_meo": [ { "id": "MEO_0000041", "label": "marine water" }, { "id": "MEO_0001378", "label": "deep" } ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }